TY  - JOUR
A1  - Doronina, Liliya
A1  - Hughes, Graham M.
A1  - Moreno-Santillan, Diana
A1  - Lawless, Colleen
A1  - Lonergan, Tadhg
A1  - Ryan, Louise
A1  - Jebb, David
A1  - Kirilenko, Bogdan M.
A1  - Korstian, Jennifer M.
A1  - Dávalos, Liliana M.
A1  - Vernes, Sonja C.
A1  - Myers, Eugene W.
A1  - Teeling, Emma C.
A1  - Hiller, Michael
A1  - Jermiin, Lars S.
A1  - Schmitz, Jürgen
A1  - Springer, Mark S.
A1  - Ray, David A.
T1  - Contradictory phylogenetic signals in the laurasiatheria anomaly zone
T2  - Genes
N2  - Relationships among laurasiatherian clades represent one of the most highly disputed topics in mammalian phylogeny. In this study, we attempt to disentangle laurasiatherian interordinal relationships using two independent genome-level approaches: (1) quantifying retrotransposon presence/absence patterns, and (2) comparisons of exon datasets at the levels of nucleotides and amino acids. The two approaches revealed contradictory phylogenetic signals, possibly due to a high level of ancestral incomplete lineage sorting. The positions of Eulipotyphla and Chiroptera as the first and second earliest divergences were consistent across the approaches. However, the phylogenetic relationships of Perissodactyla, Cetartiodactyla, and Ferae, were contradictory. While retrotransposon insertion analyses suggest a clade with Cetartiodactyla and Ferae, the exon dataset favoured Cetartiodactyla and Perissodactyla. Future analyses of hitherto unsampled laurasiatherian lineages and synergistic analyses of retrotransposon insertions, exon and conserved intron/intergenic sequences might unravel the conflicting patterns of relationships in this major mammalian clade.
KW  - retrophylogenomics
KW  - exon concatenation
KW  - exon coalescence
KW  - Laurasiatheria
KW  - Scrotifera
KW  - anomaly zone
Y1  - 2022
UR  - http://publikationen.ub.uni-frankfurt.de/frontdoor/index/index/docId/69244
UR  - https://nbn-resolving.org/urn:nbn:de:hebis:30:3-692445
SN  - 2073-4425
N1  - Data Availability Statement
All retrotransposon data are presented in Supplementary Materials. The exon DNA and amino acid alignments and individual gene trees are deposited at https://figshare.com/s/b0bca1ca0f8328ec993a (accessed on 28 March 2022).
VL  - 13
IS  - 5, art. 766
SP  - 1
EP  - 17
PB  - MDPI
CY  - Basel
ER  -